It is exporting the records successfully, but now I can see there are 3 records in EIM_ACCNT_CUT table for each account in s_org_ext table, but with different column values. Can you guys suggest me anything so that I can export account information in one record in the EIM table.

That is correct , you will get 3 records exported. You need to pull the records which is having the information for the S_ORG_EXT table , like ACC_NAME , ACC_LOC , as this record will have all the required information taht you might be looking for.